Many Datasets Include Genes that are not in genes.csv

[jjacobson95]

Many Files include genes that are not present in the genes.csv file. These non-overlapping genes should be dropped.

This was originally identified in #405, but is much more widespread than that.

Dataset	Datatype	Overlap	Non-Overlap
beataml	mutations	3064	1
beataml	proteomics	6850	1
beataml	transcriptomics	19141	1
bladderpdo	copy_number	9019	2121
bladderpdo	mutations	265	1
bladderpdo	transcriptomics	19338	0
ccle	copy_number	18929	0
ccle	mutations	18364	736
ccle	proteomics	11454	0
ccle	transcriptomics	18870	0
cptac	copy_number	19033	1
cptac	mutations	18002	864
cptac	proteomics	14706	1
cptac	transcriptomics	19023	1
ctrpv2	copy_number	18929	0
ctrpv2	mutations	18489	949
ctrpv2	proteomics	11454	0
ctrpv2	transcriptomics	18870	0
fimm	copy_number	18928	0
fimm	mutations	11466	84
fimm	proteomics	11298	0
fimm	transcriptomics	18870	0
gcsi	copy_number	18929	0
gcsi	mutations	18436	765
gcsi	proteomics	11454	0
gcsi	transcriptomics	18870	0
gdscv1	copy_number	17715	0
gdscv1	mutations	18707	0
gdscv1	proteomics	8333	0
gdscv1	transcriptomics	19016	0
gdscv2	copy_number	17715	0
gdscv2	mutations	18698	0
gdscv2	proteomics	8333	0
gdscv2	transcriptomics	19016	0
hcmi	copy_number	19026	0
hcmi	mutations	17160	542
hcmi	transcriptomics	19012	0
mpnst	copy_number	19058	0
mpnst	mutations	5709	0
mpnst	proteomics	8801	0
mpnst	transcriptomics	5299	0
mpnstpdx	copy_number	19058	0
mpnstpdx	mutations	13343	0
mpnstpdx	proteomics	8801	0
mpnstpdx	transcriptomics	5613	0
nci60	copy_number	18929	0
nci60	mutations	16421	242
nci60	proteomics	11371	0
nci60	transcriptomics	18870	0
pancpdo	copy_number	17680	0
pancpdo	mutations	15610	0
pancpdo	transcriptomics	19012	0
prism	copy_number	18929	0
prism	mutations	18414	746
prism	proteomics	11454	0
prism	transcriptomics	18870	0
sarcpdo	mutations	76	0
sarcpdo	transcriptomics	17895	0

[ymahlich]

The fact that sarcpdo has 0 overlap probably means that there is some id mapping shenanigans going on. Probably worth double checking that.

[jjacobson95]

Yeah I should have clarified, that one is caused by a float instead of int. I'll double check and update the numbers for that